KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| Anti-Mouse CD4-APC/Cyanine7 (clone GK1.5) | Biolegend | Cat# 100414; RRID:AB_312699 |
| Anti-Mouse CD25-APC (clone 3C7) | Biolegend | Cat#101910; RRID:AB_2280288 |
| Anti-Mouse CD62L-PE/Cy7 (clone MEL-14) | Biolegend | Cat# 104417; RRID:AB_313102 |
| Anti-Mouse CD44-FITC (clone IM7) | Biolegend | Cat#103006; RRID:AB_312957 |
| Biotin Anti-Mouse CXCR5 (clone 2G8) | BD Biosciences | Cat#551960; RRID:AB_394301 |
| Anti-Mouse PD-1-PE ((clone 29F.1A12) | Biolegend | Cat#135205; RRID:AB_1877232 |
| Anti-Mouse CD69-PerCP/Cy5.5 (clone H1.2F3) | Biolegend | Cat#104522; RRID:AB_2260065 |
| Anti-Mouse ICOS-FITC (clone 7E.17G9) | eBioscience | Cat#11–9942-82; RRID:AB_11218290 |
| Streptavidin eFluor450 | eBioscience | Cat# 48–4317-82; RRID:AB_10359737 |
| Anti-Mouse Batf-PE (clone 9B5A13) | Biolegend | Cat#654804; RRID:AB_2563517 |
| Anti-Mouse CD3 (clone 145–2C11) | BD Biosciences | Cat#557306; RRID:AB_396632 |
| Anti-Mouse CD28 (clone 37.51) | BD Biosciences | Cat#553295; RRID:AB_394764 |
| Anti-Mouse IFN-g (clone XMG1.2) | This paper | N/A, generated in house |
| Anti-Mouse IL-4 (clone 11B11) | This paper | N/A, generated in house |
| Rabbit Anti-Mouse Irf4 | Santa Cruz | Cat#sc-28696X; RRID:AB_2127141 |
| Rabbit Anti-Mouse Ets1 | Santa Cruz | Cat#sc-350X; RRID:AB_2100688 |
| Normal rabbit IgG | Millipore | Cat#12–370; RRID:AB_145841 |
| Rabbit Anti-Mouse H3K27me3 | Millipore | Cat#07–449; RRID:AB_310624 |
| Rabbit Anti-Mouse H3K4me3 | Millipore | Cat#07–473; RRID:AB_1977252 |
| Rabbit Anti-Mouse H3K27ac | Abcam | Cat#ab4729; RRID:AB_2118291 |
| Rabbit Anti-Mouse Batf | Schraml et al., 2009 | N/A, generated in house |
| Rabbit Anti-Mouse Med12 | Bethyl Laboratory | Cat#A300–774A; RRID:AB_669756 |
| Rabbit Anti-Mouse Ctcf. | Active Motif | Cat#61311; RRID:AB_2614975 |
| Chemicals, Peptides, and Recombinant Proteins | ||
| Recombinant Human IL-2 Protein | R&D Systems | Cat# 2G2-IL-G1G |
| Recombinant Mouse IL-6 Protein | R&D Systems | Cat#4G6-ML-G2S |
| Recombinant Human TGF-β Protein | R&D Systems | Cat#24G-B |
| Recombinant Mouse IL-1β Protein | R&D Systems | Cat#4G1-ML-G2S |
| Phorbol 12-myristate 13-acetate | Sigma-Aldrich | Cat#P18S-1MG |
| lonomycin | EMD Bioscience | Cat#4D7–9S2 |
| Dynabeads M-280 Sheep Anti-Rabbit IgG | ThermoFisher Scientific | Cat#112G3D |
| Dynabeads® MyOne Streptavidin C1 | ThermoFisher Scientific | Cat#6SGG1 |
| EcoRI-HF | NEB | Cat#R31G1M |
| HindIII-HF | NEB | Cat#R31G4M |
| NheI-HF | NEB | Cat#R3131L |
| T4 DNA Ligase | NEB | Cat#G2G2M |
| DNA Polymerase I, Large (Klenow) Fragment | NEB | Cat#G21GM |
| Deoxynucleotide (dNTP) Solution Set | NEB | Cat# NG446S |
| Biotin-14-dCTP | ThermoFisher Scientific | Cat# 19S18G18 |
| SsoAdvanced Universal SYBR Green Supermix | Bio-Rad | Cat#172S27S |
| SsoAdvanced Universal Probes Supermix | Bio-Rad | Cat#1725285 |
| iScript cDNA Synthesis Kit | Biorad | Cat# 17G8891 |
| Streptavidin | BDBiosciences | Cat#SS7S98 |
| FBS | HyClone | Cat#SH30109.03 |
| RPMI-1640 | Corning | Cat#10–040-CM |
| Penicillin/Streptomycin | Corning | Cat#30–002-Cl |
| 2-Mercaptoethanol | Sigma | Cat# M3148 |
| Non-Essential Amino Acids (MEM) | Corning | Cat#25025-Cl |
| L-Glutamine | Corning | Cat#25–005-Cl |
| HEPES | Corning | Cat#25–060-Cl |
| Sodium Pyruvate | Corning | Cat#25–000-Cl |
| Trizol | ThermoFisher | Cat# 15596018 |
| RNaseA | ThermoFisher | Cat# EN0531 |
| Critical Commercial Assays | ||
| CD4+CD62L+ T Cell Isolation Kit, mouse | Miltenyi Biotec | Cat#130–106-643 |
| QuikChange XL Site-Directed Mutagenesis Kit | Agilent Technologies | Cat# 200517 |
| Nucleofector Kits for Mouse T Cells | Lonza | Cat#VPA-1006 |
| Dual-Luciferase Reporter Assay System | Promega | Cat#E1910 |
| NEBNext DNA Library Prep Master Mix Set for Illumina | NEB | Cat# E6040S |
| NEBNext Ultra II DNA Library Prep Kit for Illumina | NEB | Cat#E7645S |
| Nextera DNA Library Prep Kit (24 samples) | llumina | Cat# FC-121–1030 |
| Qubit dsDNA HS Assay Kit | ThermoFisher Scientific | Cat# Q32851 |
| MinElute PCR Purification Kit | QIAGEN | Cat#28004 |
| LS Columns | Miltenyi Biotec | Cat# 130–042-401 |
| MS Columns | Miltenyi Biotec | Cat# 130–042-201 |
| LIVE/DEAD Fixable Near-IR Dead Cell Stain Kit | ThermoFisher Scientific | Cat# L34976 |
| Deposited Data | ||
| ATAC-seq | GEO database | GSE: 123209 |
| ChIP-seq | GEO database | GSE: 123209 |
| Hi-C seq | GEO database | GSE: 123209 |
| Experimental Models: Primary cells | ||
| Mouse: primary T lymphocytes | This paper | N/A |
| Experimental Models: Organisms/Strains | ||
| Mouse: C57BL/6J | The Jackson Laboratory | Stock No: 000664 |
| Mouse: Batf KO | The Jackson Laboratory | Stock No: 013758 |
| Mouse: Irf4fl/fl | The Jackson Laboratory | Stock No: 009380 |
| Mouse: Ets1fl/fl | Zook et al., 2016 | N/A |
| Mouse: CD4-Cre | The Jackson Laboratory | Stock No: 022071 |
| Recombinant DNA | ||
| Mouse BAC DNA Il21 | 3ACPAC Resources Center | Cat#RP23–290D8 |
| Mouse BAC DNA Il21 | 3ACPAC Resources Center | Cat#RP23–128L14 |
| Mouse BAC DNA Gapdh | 3ACPAC Resources Center | Cat#RP23–410F11 |
| MSCV-IRES-Thy1.1 | Jabeen et al., 2013 | N/A |
| MSCV-IRES-Thy1.1 Batf | Jabeen et al., 2013 | N/A |
| pCMV6-Ets1 | Origene | Cat#MR207015 |
| MSCV-IRES-Thy1.1 Ets1 | This paper | N/A, generated in house |
| pRL-TK | Promega | Cat#E2231 |
| pGL3-Il2p | This paper | N/A, generated in house |
| pGL3-Il2p -35 | This paper | N/A, generated in house |
| pGL3-Il2p -47 | This paper | N/A, generated in house |
| pGL3-Il2p -64 | This paper | N/A, generated in house |
| pGL3-Il2p -77 | This paper | N/A, generated in house |
| pGL3-Il2p -84 | This paper | N/A, generated in house |
| pGL3-Il21p | This paper | N/A, generated in house |
| pGL3-Il21p -77 | This paper | N/A, generated in house |
| pGL3-Il21p -84 | This paper | N/A, generated in house |
| pGL3-Il21p -27 | This paper | N/A, generated in house |
| pGL3-Il21p -41 | This paper | N/A, generated in house |
| pGL3-Il21p -49 | This paper | N/A, generated in house |
| pGL3-Il21p -60 | This paper | N/A, generated in house |
| pGL3-Il21p -70 | This paper | N/A, generated in house |
| pGL3-Il21p -80 | This paper | N/A, generated in house |
| pGL3-Il2p -Δ47 | This paper | N/A, generated in house |
| pGL3-Il21p -Δ49 | This paper | N/A, generated in house |
| pGL3-Il21p -Δ60 | This paper | N/A, generated in house |
| pGL3-Il21p -Δ80 | This paper | N/A, generated in house |
| Sequence-Based Reagents | ||
| Primers for cloning luciferase reporter vectors, see Table S4 | This paper | N/A |
| Primers for mutating luciferase reporter vectors, see Table S4 | This paper | N/A |
| Primers for ChIP qPCR, see Table S4 | This paper | N/A |
| Primers for 3C, see Table S4 | This paper | N/A |
| Primer for gene expression RT-PCR, see Table S4 | This paper | N/A |
| Primers for ATAC-seq | Buenrostro et al., 2013 | N/A |
| NEBNext Multiplex Oligos for Illumina (Index Primers Set 1) | NEB | Cat# E7335S |
| NEBNext Multiplex Oligos for Illumina (Index Primers Set 2) | NEB | Cat#E7500S |
| Software and Algorithms | ||
| Bowtie2 (v2.2.5) | Langmead et al., 2009 | http://bowtie-bio.sourceforge.net/bowtie2/index.shtml |
| Bowtiel (1.2.0) | Langmead et al., 2009 | https://sourceforge.net/projects/bowtie-bio/files/bowtie/1.2.0/ |
| MACS2 (v2.1.0) | Zhang et al., 2008 | https://github.com/taoliu/MACS/ |
| HOMER (v4.8) | Heinz et al., 2010 | http://homer.ucsd.edu/homer/ |
| HiC-Pro (2.7.0) | Servant et al., 2015 | https://github.com/nservant/HiC-Pro |
| IGB (9.0.0) | Nicol et al., 2009 | https://wiki.transvar.org/display/igbman/Home |
| deepTools (v2.0) | Ramírez et al., 2016 | https://deeptools.readthedocs.io/en/latest/ |
| GraphPad Prism (v7.0) | N/A | https://www.graphpad.com/ |
| pyDNase (v0.2.3) |
Piper et al., 2013 Piper et al., 2015 |
https://pythonhosted.org/pyDNase/index.html |
| Circos | Krzywinski et al., 2009 | http://circos.ca/ |
| TrimGalore (v0.4.1) | N/A | https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/ |
| Picard (v2.6.0) | N/A | http://broadinstitute.github.io/picard/ |
| R(v3.2.1) | N/A | https://www.r-project.org/ |
| FlowJo (v10) | FlowJo, LLC | https://www.flowio.com/ |